Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A7 F50 I2 R1	209	44.2	1360995	98.7%	1343302	150.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,158,129	C→T	A160A (GCC→GCT)	yqhG →	DUF3828 family putative periplasmic protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,158,129	0	C	T	98.0%	179.3 / ‑4.2	49	A160A (GCC→GCT)	yqhG	DUF3828 family putative periplasmic protein
Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (25/23); total (25/24)
Fisher's exact test for biased strand distribution p-value = 4.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01

GCTTTCGTATCTTTAAAGATGATAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCCGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCTATAAAACCACCTTCA  >  NC_000913/3157981‑3158274

gcTTTCGTATCTTTAAAGATGATAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGc                                                                                                                                                 >  1:313360/1‑151 (MQ=255)

     cGTATCTTTAAAGATGATAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTa                                                                                                                                             <  2:54861/150‑1 (MQ=255)

          cTTTAAAGATGATAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCg                                                                                                                                       >  1:262955/1‑151 (MQ=255)

           tttAAAGATGATAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGt                                                                                                                                      >  1:433976/1‑151 (MQ=255)

                     atAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCaaaa                                                                                                                               >  1:132843/1‑148 (MQ=255)

                     atAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCaaaa                                                                                                                               >  2:538838/1‑148 (MQ=255)

                      tAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGa                                                                                                                            >  1:92844/1‑150 (MQ=255)

                        aagaaaagaCCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACa                                                                                                                         <  1:394906/151‑1 (MQ=255)

                                aCCACGCAGACACTGAAAATGGAGGCGGAAAATGGTCGCTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCgg                                                                                                                    >  2:534678/1‑148 (MQ=255)

                                    cGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCt                                                                                                              <  2:672222/150‑1 (MQ=255)

                                       aGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCCGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTttgt                                                                                                          <  1:647150/151‑1 (MQ=255)

                                           acTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGcc                                                                                                      >  2:568503/1‑151 (MQ=255)

                                            cTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCg                                                                                                     >  2:257653/1‑151 (MQ=255)

                                            cTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCg                                                                                                     >  1:562016/1‑151 (MQ=255)

                                            cTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCg                                                                                                     >  2:479597/1‑151 (MQ=255)

                                              gAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGa                                                                                                    <  2:389337/150‑1 (MQ=255)

                                                    ggtggCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCtt                                                                                              <  2:176706/150‑1 (MQ=255)

                                                            aaaaTGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACatat                                                                                     <  1:303322/151‑1 (MQ=255)

                                                              aaTGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGACTTTGTTGCCGAACTCTTTGAACatat                                                                                     >  2:80663/1‑149 (MQ=255)

                                                                   tCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGAt                                                                              >  1:185442/1‑151 (MQ=255)

                                                                     gTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGAtt                                                                             >  1:524453/1‑150 (MQ=255)

                                                                     gTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATta                                                                            <  1:489689/151‑1 (MQ=255)

                                                                                  cGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTgg                                                               <  1:370068/151‑1 (MQ=255)

                                                                                   gATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTgg                                                               >  2:231097/1‑150 (MQ=255)

                                                                                    atatTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGAc                                                             >  1:287948/1‑151 (MQ=255)

                                                                                          tCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACgtggg                                                        >  2:20883/1‑150 (MQ=255)

                                                                                             gCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGggtggt                                                    >  2:558846/1‑151 (MQ=255)

                                                                                              cAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGtt                                                   <  2:136729/151‑1 (MQ=255)

                                                                                                     ggCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGAct                                            <  1:564821/151‑1 (MQ=255)

                                                                                                         gCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTa                                        <  1:555263/151‑1 (MQ=255)

                                                                                                           gTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTAcc                                      <  1:590852/151‑1 (MQ=255)

                                                                                                              ttACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGcc                                   >  1:356360/1‑151 (MQ=255)

                                                                                                                  aaGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGc                               <  2:173418/151‑1 (MQ=255)

                                                                                                                   aGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCg                              <  2:97798/151‑1 (MQ=255)

                                                                                                                   aGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCg                              <  1:91926/151‑1 (MQ=255)

                                                                                                                   aGCAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCg                              >  2:70401/1‑151 (MQ=255)

                                                                                                                     cAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGt                            >  2:652006/1‑151 (MQ=255)

                                                                                                                     cAGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGt                            >  2:451963/1‑151 (MQ=255)

                                                                                                                      aGTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGTCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGtt                           >  2:105332/1‑151 (MQ=255)

                                                                                                                       gTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTa                          <  2:524740/151‑1 (MQ=255)

                                                                                                                       gTTAATAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTa                          <  1:20883/151‑1 (MQ=255)

                                                                                                                          aaTAGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATg                       <  2:370312/151‑1 (MQ=255)

                                                                                                                             aGCGAGAATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCt                    >  1:310325/1‑151 (MQ=255)

                                                                                                                                gagaATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCt                 <  1:679592/151‑1 (MQ=255)

                                                                                                                                  gaATGAAAAAACGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCta                <  2:138388/150‑1 (MQ=255)

                                                                                                                                          aaaCGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCTATAAAaccac       >  2:189580/1‑151 (MQ=255)

                                                                                                                                            aCGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCTATAAAACCACCt     <  1:586895/151‑1 (MQ=255)

                                                                                                                                             cGCTGGCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCTATAAAACCACCtt    <  1:22562/151‑1 (MQ=255)

                                                                                                                                              gctggctgCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCTATAAAACCACCTTc   >  1:170030/1‑151 (MQ=255)

                                                                                                                                                 ggCTGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCTATAAAACCACCTTCa  <  2:513383/149‑1 (MQ=255)

GCTTTCGTATCTTTAAAGATGATAAAGAAAAGACCACGCAGACACTGAAAATGGTGGCGGAAAATGGTCGTTGGGTCATTGACGATATTGTCAGCAATCATGGCAGCGTCTTACAAGCAGTTAATAGCGAGAATGAAAAAACGCTGGCCGCTTTAGCTTCGTTGCAAAAAGAACAGCCGGAAGCCTTTGTTGCCGAACTCTTTGAACATATTGCTGATTATAGCTGGCCGTGGACGTGGGTGGTTTCCGACTCTTACCGCCAGGCGGTTAATGCCTTCTATAAAACCACCTTCA  >  NC_000913/3157981‑3158274

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 29 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A